Msx1 (msh homeobox 1) - Rat Genome Database

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Gene: Msx1 (msh homeobox 1) Rattus norvegicus
Analyze
Symbol: Msx1
Name: msh homeobox 1
RGD ID: 620929
Description: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific; p53 binding activity; and transcription cis-regulatory region binding activity. Involved in cartilage development; cellular response to nicotine; and pituitary gland development. Predicted to be located in nucleoplasm. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Biomarker of cryptorchidism. Human ortholog(s) of this gene implicated in cleft lip; cleft palate; orofacial cleft 5; tooth and nail syndrome; and tooth disease (multiple). Orthologous to human MSX1 (msh homeobox 1); INTERACTS WITH (S)-nicotine; 1-[(4-chlorophenyl)-phenylmethyl]-4-methylpiperazine; 6-propyl-2-thiouracil.
Type: protein-coding (Ensembl: pseudogene)
RefSeq Status: VALIDATED
Previously known as: homeo box, msh-like 1; homeobox protein MSX-1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
NCBI Annotation Information: Annotation category: suggests misassembly; Annotation category: partial on reference assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21472,961,170 - 72,964,970 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1472,961,148 - 72,964,966 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1477,415,192 - 77,419,125 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01478,656,060 - 78,659,993 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01475,096,617 - 75,100,553 (+)NCBIRnor_WKY
Rnor_6.01477,712,262 - 77,716,061 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1477,712,240 - 77,716,059 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01477,690,990 - 77,694,789 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41478,257,345 - 78,261,144 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11478,259,735 - 78,263,533 (+)NCBI
Celera1471,923,586 - 71,927,385 (+)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (EXP)
1-[(4-chlorophenyl)-phenylmethyl]-4-methylpiperazine  (EXP)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
cannabidiol  (ISO)
carbamazepine  (ISO)
choline  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
cyproconazole  (ISO)
cytarabine  (ISO)
DDT  (EXP)
dimethylarsinous acid  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
entinostat  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
furan  (EXP)
glycidol  (EXP)
hexaconazole  (ISO)
L-methionine  (ISO)
Licochalcone B  (ISO)
mercury dibromide  (ISO)
nicotine  (EXP)
ozone  (ISO)
p-chloromercuribenzoic acid  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
quercetin  (EXP,ISO)
retinyl acetate  (ISO)
SB 431542  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sulindac sulfide  (ISO)
temozolomide  (ISO)
thioacetamide  (EXP)
tributylstannane  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
troglitazone  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of meiosis  (ISO)
anterior/posterior pattern specification  (ISO)
BMP signaling pathway  (ISO)
BMP signaling pathway involved in heart development  (ISO)
bone morphogenesis  (ISO)
cartilage development  (IMP)
cartilage morphogenesis  (ISO)
cell morphogenesis  (ISO)
cellular response to nicotine  (IEP)
embryonic digit morphogenesis  (ISO)
embryonic forelimb morphogenesis  (ISO)
embryonic hindlimb morphogenesis  (ISO)
embryonic limb morphogenesis  (ISO)
embryonic nail plate morphogenesis  (ISO)
epithelial to mesenchymal transition  (ISO)
epithelial to mesenchymal transition involved in endocardial cushion formation  (ISO)
face morphogenesis  (ISO)
forebrain development  (ISO)
heart development  (ISO)
heart morphogenesis  (ISO)
in utero embryonic development  (ISO)
mammary gland epithelium development  (ISO)
mesenchymal cell apoptotic process  (ISO)
mesenchymal cell proliferation  (ISO)
midbrain development  (ISO)
middle ear morphogenesis  (ISO)
muscle organ development  (ISO)
negative regulation of apoptotic process  (ISO)
negative regulation of cell growth  (ISO)
negative regulation of cell population proliferation  (ISO)
negative regulation of DNA binding  (ISO)
negative regulation of DNA-templated transcription  (ISO)
negative regulation of striated muscle cell differentiation  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
negative regulation of transcription regulatory region DNA binding  (ISO)
odontogenesis  (ISO)
odontogenesis of dentin-containing tooth  (ISO)
pituitary gland development  (IEP)
positive regulation of BMP signaling pathway  (ISO)
positive regulation of intrinsic apoptotic signaling pathway by p53 class mediator  (ISO)
positive regulation of mesenchymal cell apoptotic process  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
protein localization to nucleus  (ISO)
protein stabilization  (ISO)
regulation of odontogenesis  (ISO)
roof of mouth development  (ISO)
signal transduction involved in regulation of gene expression  (ISO)
stem cell differentiation  (ISO)
transcription by RNA polymerase II  (ISO)

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Altered expression of muscle- and cytoskeleton-related genes in a rat strain with inherited cryptorchidism. Barthold JS, etal., J Androl. 2008 May-Jun;29(3):352-66. Epub 2008 Jan 24.
2. Endogenous Msx1 antisense transcript: in vivo and in vitro evidences, structure, and potential involvement in skeleton development in mammals. Blin-Wakkach C, etal., Proc Natl Acad Sci U S A 2001 Jun 19;98(13):7336-41.
3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. [Molecular cloning, expression of rat Msx-1 and Msx-2 during early embryo genesis and roles for mandibular chondrogenesis] Ishiguro S Kokubyo Gakkai Zasshi. 1999 Mar;66(1):33-45.
6. Complete sequencing shows a role for MSX1 in non-syndromic cleft lip and palate. Jezewski PA, etal., J Med Genet. 2003 Jun;40(6):399-407.
7. Regulation of MT melatonin receptor expression in the foetal rat pituitary. Johnston JD, etal., J Neuroendocrinol. 2006 Jan;18(1):50-6.
8. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
9. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
10. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
11. GOA pipeline RGD automated data pipeline
12. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Comprehensive gene review and curation RGD comprehensive gene curation
15. A human MSX1 homeodomain missense mutation causes selective tooth agenesis. Vastardis H, etal., Nat Genet. 1996 Aug;13(4):417-21.
16. Nicotine promotes cardiomyocyte apoptosis via oxidative stress and altered apoptosis-related gene expression. Zhou X, etal., Cardiology. 2010;115(4):243-50. Epub 2010 Mar 26.
Additional References at PubMed
PMID:7916326   PMID:8858134   PMID:8861098   PMID:8898217   PMID:9369446   PMID:9697309   PMID:10340755   PMID:10742093   PMID:10742104   PMID:11023873   PMID:11332647   PMID:11369996  
PMID:12489152   PMID:12651933   PMID:15188430   PMID:15192231   PMID:15217086   PMID:15705871   PMID:15930102   PMID:16002402   PMID:16330189   PMID:17030628   PMID:17601530   PMID:17693062  
PMID:18285513   PMID:18590716   PMID:18667074   PMID:19422820   PMID:20004191   PMID:20123092   PMID:21465616   PMID:22071108   PMID:27741242  


Genomics

Comparative Map Data
Msx1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21472,961,170 - 72,964,970 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1472,961,148 - 72,964,966 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1477,415,192 - 77,419,125 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01478,656,060 - 78,659,993 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01475,096,617 - 75,100,553 (+)NCBIRnor_WKY
Rnor_6.01477,712,262 - 77,716,061 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1477,712,240 - 77,716,059 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01477,690,990 - 77,694,789 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41478,257,345 - 78,261,144 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11478,259,735 - 78,263,533 (+)NCBI
Celera1471,923,586 - 71,927,385 (+)NCBICelera
Cytogenetic Map14q21NCBI
MSX1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3844,859,665 - 4,863,936 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl44,859,665 - 4,863,936 (+)EnsemblGRCh38hg38GRCh38
GRCh3744,861,392 - 4,865,663 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3644,912,293 - 4,916,564 (+)NCBINCBI36Build 36hg18NCBI36
Build 3444,979,477 - 4,983,530NCBI
Celera44,758,413 - 4,762,671 (+)NCBICelera
Cytogenetic Map4p16.2NCBI
HuRef44,797,648 - 4,801,917 (+)NCBIHuRef
CHM1_144,859,330 - 4,863,591 (+)NCBICHM1_1
T2T-CHM13v2.044,829,290 - 4,833,545 (+)NCBIT2T-CHM13v2.0
Msx1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39537,977,835 - 37,981,929 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl537,977,829 - 37,981,927 (-)EnsemblGRCm39 Ensembl
GRCm38537,820,491 - 37,824,585 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl537,820,485 - 37,824,583 (-)EnsemblGRCm38mm10GRCm38
MGSCv37538,211,730 - 38,215,824 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36538,108,742 - 38,112,705 (-)NCBIMGSCv36mm8
Celera535,276,257 - 35,280,351 (-)NCBICelera
Cytogenetic Map5B3NCBI
cM Map520.21NCBI
Msx1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555144,923,552 - 4,927,471 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555144,923,552 - 4,927,471 (-)NCBIChiLan1.0ChiLan1.0
MSX1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.144,935,603 - 4,939,117 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl44,935,600 - 4,939,079 (+)Ensemblpanpan1.1panPan2
MSX1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1370,232,790 - 70,236,295 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl370,232,052 - 70,236,447 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha372,783,942 - 72,787,987 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0370,991,546 - 70,995,590 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl370,991,361 - 70,995,465 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1370,263,330 - 70,267,578 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0370,426,128 - 70,430,168 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0370,808,811 - 70,812,856 (+)NCBIUU_Cfam_GSD_1.0
Msx1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528563,704,859 - 63,711,968 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647717,409,191 - 17,412,919 (+)EnsemblSpeTri2.0
SpeTri2.0NW_00493647717,406,551 - 17,413,615 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MSX1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl85,628,380 - 5,632,607 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.185,628,381 - 5,632,375 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.285,246,698 - 5,250,692 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MSX1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12741,028,763 - 41,032,676 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2741,028,919 - 41,033,006 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604787,832,093 - 87,836,013 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Msx1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475521,857,461 - 21,861,337 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475521,857,360 - 21,861,235 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Msx1
24 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:384
Count of miRNA genes:212
Interacting mature miRNAs:248
Transcripts:ENSRNOT00000009101
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143032009280829842Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143766971982669719Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143766971982669719Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143766971982669719Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143766971982669719Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143905723783368335Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143999825175582726Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144226252995023211Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)145002321195023211Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1455624247100624247Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1456631369101631369Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat
70153Bp59Blood pressure QTL 593.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)146875779683368335Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1470053989104886043Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1470053989104886043Rat

Markers in Region
RH130342  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21472,964,607 - 72,964,791 (+)MAPPERmRatBN7.2
Rnor_6.01477,715,700 - 77,715,883NCBIRnor6.0
Rnor_5.01477,694,428 - 77,694,611UniSTSRnor5.0
RGSC_v3.41478,260,783 - 78,260,966UniSTSRGSC3.4
Celera1471,927,024 - 71,927,207UniSTS
Cytogenetic Map14q21UniSTS
AI324650  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21472,964,681 - 72,964,798 (+)MAPPERmRatBN7.2
Rnor_6.01477,715,774 - 77,715,890NCBIRnor6.0
Rnor_5.01477,694,502 - 77,694,618UniSTSRnor5.0
RGSC_v3.41478,260,857 - 78,260,973UniSTSRGSC3.4
Celera1471,927,098 - 71,927,214UniSTS
Cytogenetic Map14q21UniSTS
Msx1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21472,961,262 - 72,961,723 (+)MAPPERmRatBN7.2
Rnor_6.01477,712,356 - 77,712,815NCBIRnor6.0
Rnor_5.01477,691,084 - 77,691,543UniSTSRnor5.0
Celera1471,923,680 - 71,924,139UniSTS
Cytogenetic Map14q21UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 23 9
Low 41 9 4 9 4 8 11 51 23 24 11 8
Below cutoff 3 33 22 10 22 12 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000009101   ⟹   ENSRNOP00000009101
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1477,712,240 - 77,716,059 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109302
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1472,961,148 - 72,964,966 (+)Ensembl
RefSeq Acc Id: NM_031059   ⟹   NP_112321
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21472,961,170 - 72,964,970 (+)NCBI
Rnor_6.01477,712,262 - 77,716,061 (+)NCBI
Rnor_5.01477,690,990 - 77,694,789 (+)NCBI
RGSC_v3.41478,257,345 - 78,261,144 (+)RGD
Celera1471,923,586 - 71,927,385 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_112321 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAK70504 (Get FASTA)   NCBI Sequence Viewer  
  BAA11750 (Get FASTA)   NCBI Sequence Viewer  
  EDM00020 (Get FASTA)   NCBI Sequence Viewer  
  EDM00021 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_112321   ⟸   NM_031059
- Sequence:
RefSeq Acc Id: ENSRNOP00000009101   ⟸   ENSRNOT00000009101
Protein Domains
Homeobox

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V6U7-F1-model_v2 AlphaFold G3V6U7 1-297 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620929 AgrOrtholog
BioCyc Gene G2FUF-15370 BioCyc
Ensembl Genes ENSRNOG00000006876 Ensembl
  ENSRNOG00000068566 Ensembl
InterPro Homeobox UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeobox_metazoa UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
KEGG Report rno:81710 UniProtKB/TrEMBL
NCBI Gene 81710 ENTREZGENE
Pfam Homeobox UniProtKB/TrEMBL
PhenoGen Msx1 PhenoGen
PRINTS HOMEOBOX UniProtKB/TrEMBL
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt Q9QUG0_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-09 Msx1  msh homeobox 1  Msx1  homeo box, msh-like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-26 Msx1  homeo box, msh-like 1      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Msx1  homeo box, msh-like 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in dental and craniofacial tissues 724434